BAHD superfamily of acyl-CoA dependent acyltransferases in Populus and Arabidopsis: bioinformatics and gene expression.
Identifieur interne : 003600 ( Main/Curation ); précédent : 003599; suivant : 003601BAHD superfamily of acyl-CoA dependent acyltransferases in Populus and Arabidopsis: bioinformatics and gene expression.
Auteurs : Xiao-Hong Yu [États-Unis] ; Jin-Ying Gou ; Chang-Jun LiuSource :
- Plant molecular biology [ 1573-5028 ] ; 2009.
Descripteurs français
- KwdFr :
- Acyl coenzyme A (métabolisme), Acyltransferases (classification), Acyltransferases (génétique), Acyltransferases (métabolisme), Arabidopsis (enzymologie), Arabidopsis (génétique), Bases de données d'acides nucléiques (statistiques et données numériques), Cartographie chromosomique (MeSH), Chromosomes de plante (génétique), Données de séquences moléculaires (MeSH), Famille multigénique (MeSH), Phylogenèse (MeSH), Populus (enzymologie), Populus (génétique), Protéines végétales (génétique), Protéines végétales (métabolisme), RT-PCR (MeSH), Régulation de l'expression des gènes codant pour des enzymes (MeSH), Régulation de l'expression des gènes végétaux (MeSH), Séquence d'acides aminés (MeSH), Séquençage par oligonucléotides en batterie (statistiques et données numériques).
- MESH :
- classification : Acyltransferases.
- enzymologie : Arabidopsis, Populus.
- génétique : Acyltransferases, Arabidopsis, Chromosomes de plante, Populus, Protéines végétales.
- métabolisme : Acyl coenzyme A, Acyltransferases, Protéines végétales.
- statistiques et données numériques : Bases de données d'acides nucléiques, Séquençage par oligonucléotides en batterie.
- Cartographie chromosomique, Données de séquences moléculaires, Famille multigénique, Phylogenèse, RT-PCR, Régulation de l'expression des gènes codant pour des enzymes, Régulation de l'expression des gènes végétaux, Séquence d'acides aminés.
English descriptors
- KwdEn :
- Acyl Coenzyme A (metabolism), Acyltransferases (classification), Acyltransferases (genetics), Acyltransferases (metabolism), Amino Acid Sequence (MeSH), Arabidopsis (enzymology), Arabidopsis (genetics), Chromosome Mapping (MeSH), Chromosomes, Plant (genetics), Databases, Nucleic Acid (statistics & numerical data), Gene Expression Regulation, Enzymologic (MeSH), Gene Expression Regulation, Plant (MeSH), Molecular Sequence Data (MeSH), Multigene Family (MeSH), Oligonucleotide Array Sequence Analysis (statistics & numerical data), Phylogeny (MeSH), Plant Proteins (genetics), Plant Proteins (metabolism), Populus (enzymology), Populus (genetics), Reverse Transcriptase Polymerase Chain Reaction (MeSH).
- MESH :
- chemical , classification : Acyltransferases.
- chemical , genetics : Acyltransferases, Plant Proteins.
- chemical , metabolism : Acyl Coenzyme A, Acyltransferases, Plant Proteins.
- enzymology : Arabidopsis, Populus.
- genetics : Arabidopsis, Chromosomes, Plant, Populus.
- statistics & numerical data : Databases, Nucleic Acid, Oligonucleotide Array Sequence Analysis.
- Amino Acid Sequence, Chromosome Mapping, Gene Expression Regulation, Enzymologic, Gene Expression Regulation, Plant, Molecular Sequence Data, Multigene Family, Phylogeny, Reverse Transcriptase Polymerase Chain Reaction.
Abstract
Plant acyl-CoA dependent acyltransferases constitute a large specific protein superfamily, named BAHD. Using the conserved sequence motifs of BAHD members, we searched the genome sequences of Populus and Arabidopsis, and identified, respectively, 94- and 61-putative genes. Subsequently, we analyzed the phylogeny, gene structure, and chromosomal distribution of BAHD members of both species; then, we profiled expression patterns of BAHD genes by "in silico" northern- and microarray-analyses based on public databases, and by RT-PCR. While our genomic- and bioinformatic- analyses provided full sets of BAHD superfamily genes, and cleaned up a few existing annotation errors, importantly it led to our recognizing several unique Arabidopsis BAHD genes that inversely overlapped with their neighboring genes on the genome, and disclosing a potential natural anti-sense regulation for gene expressions. Systemic gene-expression profiling of BAHD members revealed distinct tissue-specific/preferential expression patterns, indicating their diverse biological functions. Our study affords a strong knowledge base for understanding BAHD members' evolutionary relationships and gene functions implicated in plant growth, development and metabolism.
DOI: 10.1007/s11103-009-9482-1
PubMed: 19343509
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Using the conserved sequence motifs of BAHD members, we searched the genome sequences of Populus and Arabidopsis, and identified, respectively, 94- and 61-putative genes. Subsequently, we analyzed the phylogeny, gene structure, and chromosomal distribution of BAHD members of both species; then, we profiled expression patterns of BAHD genes by "in silico" northern- and microarray-analyses based on public databases, and by RT-PCR. While our genomic- and bioinformatic- analyses provided full sets of BAHD superfamily genes, and cleaned up a few existing annotation errors, importantly it led to our recognizing several unique Arabidopsis BAHD genes that inversely overlapped with their neighboring genes on the genome, and disclosing a potential natural anti-sense regulation for gene expressions. Systemic gene-expression profiling of BAHD members revealed distinct tissue-specific/preferential expression patterns, indicating their diverse biological functions. Our study affords a strong knowledge base for understanding BAHD members' evolutionary relationships and gene functions implicated in plant growth, development and metabolism.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">19343509</PMID><DateCompleted><Year>2009</Year><Month>07</Month><Day>20</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1573-5028</ISSN><JournalIssue CitedMedium="Internet"><Volume>70</Volume><Issue>4</Issue><PubDate><Year>2009</Year><Month>Jul</Month></PubDate></JournalIssue><Title>Plant molecular biology</Title><ISOAbbreviation>Plant Mol Biol</ISOAbbreviation></Journal><ArticleTitle>BAHD superfamily of acyl-CoA dependent acyltransferases in Populus and Arabidopsis: bioinformatics and gene expression.</ArticleTitle><Pagination><MedlinePgn>421-42</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1007/s11103-009-9482-1</ELocationID><Abstract><AbstractText>Plant acyl-CoA dependent acyltransferases constitute a large specific protein superfamily, named BAHD. Using the conserved sequence motifs of BAHD members, we searched the genome sequences of Populus and Arabidopsis, and identified, respectively, 94- and 61-putative genes. Subsequently, we analyzed the phylogeny, gene structure, and chromosomal distribution of BAHD members of both species; then, we profiled expression patterns of BAHD genes by "in silico" northern- and microarray-analyses based on public databases, and by RT-PCR. While our genomic- and bioinformatic- analyses provided full sets of BAHD superfamily genes, and cleaned up a few existing annotation errors, importantly it led to our recognizing several unique Arabidopsis BAHD genes that inversely overlapped with their neighboring genes on the genome, and disclosing a potential natural anti-sense regulation for gene expressions. Systemic gene-expression profiling of BAHD members revealed distinct tissue-specific/preferential expression patterns, indicating their diverse biological functions. Our study affords a strong knowledge base for understanding BAHD members' evolutionary relationships and gene functions implicated in plant growth, development and metabolism.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Yu</LastName><ForeName>Xiao-Hong</ForeName><Initials>XH</Initials><AffiliationInfo><Affiliation>Department of Biology, Brookhaven National Laboratory, Upton, NY 11973, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Gou</LastName><ForeName>Jin-Ying</ForeName><Initials>JY</Initials></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Chang-Jun</ForeName><Initials>CJ</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType></PublicationTypeList><ArticleDate 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